ARFL_ORYSJ
ID ARFL_ORYSJ Reviewed; 818 AA.
AC Q0J951; B9FD89; Q7XPI3; Q8S977;
DT 11-SEP-2007, integrated into UniProtKB/Swiss-Prot.
DT 03-OCT-2006, sequence version 1.
DT 03-AUG-2022, entry version 101.
DE RecName: Full=Auxin response factor 12;
DE AltName: Full=OsARF8;
GN Name=ARF12; Synonyms=ARF8; OrderedLocusNames=Os04g0671900, LOC_Os04g57610;
GN ORFNames=OsJ_16583 {ECO:0000312|EMBL:EEE61886.1}, OSJNBb0004A17.6;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12447439; DOI=10.1038/nature01183;
RA Feng Q., Zhang Y., Hao P., Wang S., Fu G., Huang Y., Li Y., Zhu J., Liu Y.,
RA Hu X., Jia P., Zhang Y., Zhao Q., Ying K., Yu S., Tang Y., Weng Q.,
RA Zhang L., Lu Y., Mu J., Lu Y., Zhang L.S., Yu Z., Fan D., Liu X., Lu T.,
RA Li C., Wu Y., Sun T., Lei H., Li T., Hu H., Guan J., Wu M., Zhang R.,
RA Zhou B., Chen Z., Chen L., Jin Z., Wang R., Yin H., Cai Z., Ren S., Lv G.,
RA Gu W., Zhu G., Tu Y., Jia J., Zhang Y., Chen J., Kang H., Chen X., Shao C.,
RA Sun Y., Hu Q., Zhang X., Zhang W., Wang L., Ding C., Sheng H., Gu J.,
RA Chen S., Ni L., Zhu F., Chen W., Lan L., Lai Y., Cheng Z., Gu M., Jiang J.,
RA Li J., Hong G., Xue Y., Han B.;
RT "Sequence and analysis of rice chromosome 4.";
RL Nature 420:316-320(2002).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=15685292; DOI=10.1371/journal.pbio.0030038;
RA Yu J., Wang J., Lin W., Li S., Li H., Zhou J., Ni P., Dong W., Hu S.,
RA Zeng C., Zhang J., Zhang Y., Li R., Xu Z., Li S., Li X., Zheng H., Cong L.,
RA Lin L., Yin J., Geng J., Li G., Shi J., Liu J., Lv H., Li J., Wang J.,
RA Deng Y., Ran L., Shi X., Wang X., Wu Q., Li C., Ren X., Wang J., Wang X.,
RA Li D., Liu D., Zhang X., Ji Z., Zhao W., Sun Y., Zhang Z., Bao J., Han Y.,
RA Dong L., Ji J., Chen P., Wu S., Liu J., Xiao Y., Bu D., Tan J., Yang L.,
RA Ye C., Zhang J., Xu J., Zhou Y., Yu Y., Zhang B., Zhuang S., Wei H.,
RA Liu B., Lei M., Yu H., Li Y., Xu H., Wei S., He X., Fang L., Zhang Z.,
RA Zhang Y., Huang X., Su Z., Tong W., Li J., Tong Z., Li S., Ye J., Wang L.,
RA Fang L., Lei T., Chen C.-S., Chen H.-C., Xu Z., Li H., Huang H., Zhang F.,
RA Xu H., Li N., Zhao C., Li S., Dong L., Huang Y., Li L., Xi Y., Qi Q.,
RA Li W., Zhang B., Hu W., Zhang Y., Tian X., Jiao Y., Liang X., Jin J.,
RA Gao L., Zheng W., Hao B., Liu S.-M., Wang W., Yuan L., Cao M.,
RA McDermott J., Samudrala R., Wang J., Wong G.K.-S., Yang H.;
RT "The genomes of Oryza sativa: a history of duplications.";
RL PLoS Biol. 3:266-281(2005).
RN [6]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
RN [7]
RP NUCLEOTIDE SEQUENCE [MRNA] OF 24-818.
RC STRAIN=cv. Nipponbare;
RX PubMed=11922106; DOI=10.1266/ggs.76.373;
RA Sato Y., Nishimura A., Ito M., Ashikari M., Hirano H.-Y., Matsuoka M.;
RT "Auxin response factor family in rice.";
RL Genes Genet. Syst. 76:373-380(2001).
RN [8]
RP GENE FAMILY, TISSUE SPECIFICITY, AND NOMENCLATURE.
RX PubMed=17408882; DOI=10.1016/j.gene.2007.01.006;
RA Wang D., Pei K., Fu Y., Sun Z., Li S., Liu H., Tang K., Han B., Tao Y.;
RT "Genome-wide analysis of the auxin response factors (ARF) gene family in
RT rice (Oryza sativa).";
RL Gene 394:13-24(2007).
CC -!- FUNCTION: Auxin response factors (ARFs) are transcriptional factors
CC that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the
CC auxin-responsive promoter elements (AuxREs).
CC -!- SUBUNIT: Homodimers and heterodimers. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000255|PROSITE-ProRule:PRU00326}.
CC -!- TISSUE SPECIFICITY: Expressed in roots, culms, leaves and young
CC panicles. {ECO:0000269|PubMed:17408882}.
CC -!- DOMAIN: Interactions between auxin response factors (ARFs) and Aux/IAA
CC proteins occur through their C-terminal dimerization domains III and
CC IV.
CC -!- SIMILARITY: Belongs to the ARF family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=CAE03604.2; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AL606652; CAE03604.2; ALT_SEQ; Genomic_DNA.
DR EMBL; AP008210; BAF16136.1; -; Genomic_DNA.
DR EMBL; AP014960; BAS91572.1; -; Genomic_DNA.
DR EMBL; CM000141; EEE61886.1; -; Genomic_DNA.
DR EMBL; AK071455; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AB071298; BAB85918.1; -; mRNA.
DR RefSeq; XP_015636874.1; XM_015781388.1.
DR AlphaFoldDB; Q0J951; -.
DR SMR; Q0J951; -.
DR STRING; 4530.OS04T0671900-01; -.
DR PaxDb; Q0J951; -.
DR PRIDE; Q0J951; -.
DR EnsemblPlants; Os04t0671900-01; Os04t0671900-01; Os04g0671900.
DR GeneID; 4337363; -.
DR Gramene; Os04t0671900-01; Os04t0671900-01; Os04g0671900.
DR KEGG; osa:4337363; -.
DR eggNOG; ENOG502QPWF; Eukaryota.
DR HOGENOM; CLU_002626_1_0_1; -.
DR InParanoid; Q0J951; -.
DR OMA; WLEKKCL; -.
DR OrthoDB; 136657at2759; -.
DR PlantReactome; R-OSA-5608118; Auxin signalling.
DR Proteomes; UP000000763; Chromosome 4.
DR Proteomes; UP000007752; Chromosome 4.
DR Proteomes; UP000059680; Chromosome 4.
DR ExpressionAtlas; Q0J951; baseline and differential.
DR Genevisible; Q0J951; OS.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0009734; P:auxin-activated signaling pathway; IEA:UniProtKB-KW.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:InterPro.
DR CDD; cd10017; B3_DNA; 1.
DR Gene3D; 2.40.330.10; -; 1.
DR InterPro; IPR010525; ARF_dom.
DR InterPro; IPR044835; ARF_plant.
DR InterPro; IPR033389; AUX/IAA_dom.
DR InterPro; IPR003340; B3_DNA-bd.
DR InterPro; IPR015300; DNA-bd_pseudobarrel_sf.
DR InterPro; IPR000270; PB1_dom.
DR PANTHER; PTHR31384; PTHR31384; 1.
DR Pfam; PF02309; AUX_IAA; 1.
DR Pfam; PF06507; Auxin_resp; 1.
DR Pfam; PF02362; B3; 1.
DR SMART; SM01019; B3; 1.
DR SUPFAM; SSF101936; SSF101936; 1.
DR PROSITE; PS50863; B3; 1.
DR PROSITE; PS51745; PB1; 1.
PE 2: Evidence at transcript level;
KW Auxin signaling pathway; DNA-binding; Nucleus; Reference proteome;
KW Transcription; Transcription regulation.
FT CHAIN 1..818
FT /note="Auxin response factor 12"
FT /id="PRO_0000299269"
FT DOMAIN 719..803
FT /note="PB1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01081"
FT DNA_BIND 135..237
FT /note="TF-B3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00326"
FT REGION 1..24
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 526..565
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 629..648
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 9..23
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 526..550
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT CONFLICT 461
FT /note="F -> L (in Ref. 6; AK071455)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 818 AA; 90901 MW; 4C949AEFB2B9FC40 CRC64;
MSSSSAASIG PPQPPPPPAP PEEEKKCLNS ELWHACAGPL VCLPTVGTRV VYFPQGHSEQ
VAASTNKEVE GHIPNYPNLP AQLICQLHDV TMHADVETDE VYAQMTLQPL NPQEQNDAYL
PAEMGIMSKQ PTNYFCKTLT ASDTSTHGGF SVPRRAAERV FPPLDFTQQP PAQELIARDI
HDIEWKFRHI FRGQPKRHLL TTGWSVFVSA KRLVAGDSVL FIWNEKNQLL LGIRRASRPQ
TVMPSSVLSS DSMHIGLLAA AAHAAATNSR FTIFYNPRAS PSEFVIPLSK YIKAVFHTRI
SVGMRFRMLF ETEESSVRRY MGTITEVSDA DPVRWPSSYW RSVKVGWDES TAGERPPRVS
LWEIEPLTTF PMYPSLFPLR VKHPWYSGVA SLHDDSNALM WLRGVAGEGG FQSLNFQSPG
IGSWGQQRLH PSLLSSDHDQ YQAVVAAAAA SQSGGYLKQQ FLHLQQPMQS PQEHCNLNPL
LQQQILQQAS QQQIINPDAQ NIQTMLSPSA IQQQLQQLQQ MQQVQNDQKQ KIQPDQSYQV
PTSAVLPSPT SLPSHLREKF GFSDPNANSS SFITSSSSDN MLDSSFLQGS SKAVDLSRFN
QPVASEQQQQ QQQAWKQKFM GSQSVSFGGS VLHNSPTSKD GSVENKIGRD VQNQSLFSPQ
VDSSSLLYNM VPNLTSNVSD GNLSTIPSGS TYLQNAMYGC LDDSSGLLQN TGENDPATRT
FVKVYKSGSV GRSLDITRFS NYAELREELG QMFGIKGQLD DPDRSGWQLV FVDRENDVLL
LGDDPWESFV NSVWYIKILS PEDVHKMGKQ GNDPRYLS
